miRNA display CGI


Results 1 - 20 of 21 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
12224 5' -52.4 NC_003309.1 + 27514 0.66 0.85954
Target:  5'- -uUCGCGCUCGacCAGUUAaAGCGcAUCc -3'
miRNA:   3'- ccAGCGCGAGCa-GUCGAUgUUGC-UAG- -5'
12224 5' -52.4 NC_003309.1 + 43178 0.66 0.851018
Target:  5'- cGUCGCGCgaaccgCGUCAGCgagccCGAg- -3'
miRNA:   3'- cCAGCGCGa-----GCAGUCGauguuGCUag -5'
12224 5' -52.4 NC_003309.1 + 22381 0.66 0.845789
Target:  5'- cGUCGaacgcccgcgcggccUGCUCGUCGGCaagccgaugUGCGcCGAUCa -3'
miRNA:   3'- cCAGC---------------GCGAGCAGUCG---------AUGUuGCUAG- -5'
12224 5' -52.4 NC_003309.1 + 44889 0.66 0.845789
Target:  5'- -cUCGCGCUUGccguacaCGGCUgacucagguucgccgGCGGCGAUCc -3'
miRNA:   3'- ccAGCGCGAGCa------GUCGA---------------UGUUGCUAG- -5'
12224 5' -52.4 NC_003309.1 + 12540 0.66 0.842257
Target:  5'- -uUCGCGCgcccuUCGUCAGUUcgucccgucgACGGCGAa- -3'
miRNA:   3'- ccAGCGCG-----AGCAGUCGA----------UGUUGCUag -5'
12224 5' -52.4 NC_003309.1 + 44257 0.66 0.842257
Target:  5'- cGGUUGUGCUCGaCAGUcgaaugUGCGccCGGUCc -3'
miRNA:   3'- -CCAGCGCGAGCaGUCG------AUGUu-GCUAG- -5'
12224 5' -52.4 NC_003309.1 + 46284 0.66 0.83689
Target:  5'- --gCGCGCgugcccuuccuugcCGUCAGCgGCAuCGAUCa -3'
miRNA:   3'- ccaGCGCGa-------------GCAGUCGaUGUuGCUAG- -5'
12224 5' -52.4 NC_003309.1 + 10703 0.66 0.835083
Target:  5'- cGG-CGCGCUCGagcuccugcugcgCGGCggccgucucgcggGCGAUGAUCg -3'
miRNA:   3'- -CCaGCGCGAGCa------------GUCGa------------UGUUGCUAG- -5'
12224 5' -52.4 NC_003309.1 + 12166 0.66 0.833267
Target:  5'- cGGUUGCGaccgcCUCGacgcgCAGUUGC-GCGAUCc -3'
miRNA:   3'- -CCAGCGC-----GAGCa----GUCGAUGuUGCUAG- -5'
12224 5' -52.4 NC_003309.1 + 50455 0.67 0.824058
Target:  5'- uGGUCGCcaucuuaccGCUCGUCAGCggucCAcUGAa- -3'
miRNA:   3'- -CCAGCG---------CGAGCAGUCGau--GUuGCUag -5'
12224 5' -52.4 NC_003309.1 + 44178 0.67 0.824058
Target:  5'- cGG-CGCGCUgcCGcUCGGCguacGCGACGAg- -3'
miRNA:   3'- -CCaGCGCGA--GC-AGUCGa---UGUUGCUag -5'
12224 5' -52.4 NC_003309.1 + 16754 0.67 0.814639
Target:  5'- cGUCGCGCgccgaCGUCAGgaACGcGCGGa- -3'
miRNA:   3'- cCAGCGCGa----GCAGUCgaUGU-UGCUag -5'
12224 5' -52.4 NC_003309.1 + 11447 0.67 0.795217
Target:  5'- cGUCGcCGC-CGUCuGUUGCGgacacgaaGCGGUCa -3'
miRNA:   3'- cCAGC-GCGaGCAGuCGAUGU--------UGCUAG- -5'
12224 5' -52.4 NC_003309.1 + 4147 0.68 0.775088
Target:  5'- cGGUCGCGCUCccgCcGUUGCuguCGAUg -3'
miRNA:   3'- -CCAGCGCGAGca-GuCGAUGuu-GCUAg -5'
12224 5' -52.4 NC_003309.1 + 39959 0.68 0.742711
Target:  5'- cGG-CGCGCUUGUCGagcaccuGUUGCGcgaaguugcaaGCGAUCu -3'
miRNA:   3'- -CCaGCGCGAGCAGU-------CGAUGU-----------UGCUAG- -5'
12224 5' -52.4 NC_003309.1 + 20297 0.69 0.689405
Target:  5'- -aUCGCGUUCGUgaucCAGCccGCAcCGAUCa -3'
miRNA:   3'- ccAGCGCGAGCA----GUCGa-UGUuGCUAG- -5'
12224 5' -52.4 NC_003309.1 + 36357 0.69 0.689405
Target:  5'- aGGUCGaCGCg---CAGUUgaacGCGACGAUCg -3'
miRNA:   3'- -CCAGC-GCGagcaGUCGA----UGUUGCUAG- -5'
12224 5' -52.4 NC_003309.1 + 43707 0.7 0.611191
Target:  5'- --gCGUGCcaUCGUCGGCUaGCAGCGcgCg -3'
miRNA:   3'- ccaGCGCG--AGCAGUCGA-UGUUGCuaG- -5'
12224 5' -52.4 NC_003309.1 + 10049 0.71 0.60001
Target:  5'- cGcCGCGCgCGUCAGCgccuCGACGAg- -3'
miRNA:   3'- cCaGCGCGaGCAGUCGau--GUUGCUag -5'
12224 5' -52.4 NC_003309.1 + 8708 0.74 0.430355
Target:  5'- cGGUCGC-CgacCGUCGGCUcgcGCAcuGCGAUCu -3'
miRNA:   3'- -CCAGCGcGa--GCAGUCGA---UGU--UGCUAG- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.